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Crystal structure of the catalytic domain of human mmp12 complexed with the inhibitor (S)-N-(2,3-dihydroxypropyl)-4-methoxy-N-(2-nitroso-2-oxoethyl)benzenesulfonamide
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 0.1M TRIS, 30% PEG 6000, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.18 43.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.557 α = 90 b = 60.472 β = 114.55 c = 53.859 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD OXFORD ONYX CCD mirrors M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE OXFORD DIFFRACTION ENHANCED ULTRA 1.54056
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.7 14.5 94.5 0.039 0.039 23.1 3.8 15724 15724 10.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.7 1.79 65.1 0.114 0.114 8.1 1.6 1575
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.7 14.45 14301 14301 1422 100 0.17233 0.17233 0.17051 0.1702 0.19048 0.1897 RANDOM 10.307
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 0.21 -0.16 0.02 -0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.219 r_dihedral_angle_4_deg 17.588 r_dihedral_angle_3_deg 11.241 r_sphericity_free 7.009 r_dihedral_angle_1_deg 5.82 r_scangle_it 2.726 r_scbond_it 1.87 r_angle_refined_deg 1.241 r_mcangle_it 1.198 r_mcbond_it 0.747
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.219 r_dihedral_angle_4_deg 17.588 r_dihedral_angle_3_deg 11.241 r_sphericity_free 7.009 r_dihedral_angle_1_deg 5.82 r_scangle_it 2.726 r_scbond_it 1.87 r_angle_refined_deg 1.241 r_mcangle_it 1.198 r_mcbond_it 0.747 r_nbtor_refined 0.306 r_nbd_refined 0.196 r_symmetry_vdw_refined 0.18 r_xyhbond_nbd_refined 0.147 r_symmetry_hbond_refined 0.145 r_chiral_restr 0.117 r_metal_ion_refined 0.109 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1238 Nucleic Acid Atoms Solvent Atoms 139 Heterogen Atoms 27
Software Software Software Name Purpose CrysalisPro data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling